I've integrated Unity into a native iOS application using a combination of these two tutorials.
http://www.makethegame.net/unity/add-unity3d-to-native-ios-app-with-unity-5-and-vuforia-4-x/
http://www.the-nerd.be/2015/08/20/a-better-way-to-integrate-unity3d-within-a-native-ios-application/
I'm using my own app delegate and window, switching to unity's window when the Unity view is required.
I've discovered that I can prevent Unity from launching and locking resources...
Native integration re-initialization
http://www.makethegame.net/unity/add-unity3d-to-native-ios-app-with-unity-5-and-vuforia-4-x/
http://www.the-nerd.be/2015/08/20/a-better-way-to-integrate-unity3d-within-a-native-ios-application/
I'm using my own app delegate and window, switching to unity's window when the Unity view is required.
I've discovered that I can prevent Unity from launching and locking resources...
Native integration re-initialization